http://lod.bco-dmo.org/id/dataset/662681
eng; USA
utf8
dataset
Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
2016-10-25
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Cell abundance, nutrient and DMSP concentrations measured during a mesocosm study of the effect of phytoplankton composition on bacterial DMSP transformation (OceanSulfurFluxBact project)
2016-10-25
publication
2016-10-25
revision
BCO-DMO Linked Data URI
2016-10-25
creation
http://lod.bco-dmo.org/id/dataset/662681
Mary Ann Moran
University of Georgia
principalInvestigator
James M. Birch
Monterey Bay Aquarium Research Institute
principalInvestigator
Ronald P. Kiene
University of South Alabama
principalInvestigator
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
publisher
Cite this dataset as: Moran, M., Birch, J. M., Kiene, R. P. (2016) Cell abundance, nutrient and DMSP concentrations measured during a mesocosm study of the effect of phytoplankton composition on bacterial DMSP transformation (OceanSulfurFluxBact project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). Version Date 2016-10-25 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/662681 [access date]
Cell abundance, nutrient, DMSP concentrations from mesocosm experiment Dataset Description: Methods and Sampling: <p><strong>Cell counts</strong>: Ruegeria pomeroyi, Thalassiosira pseudonana, and Alexandrium tamarense cells were measured using a flow cytometer.</p>
<p><strong>DIN</strong>: Cadmium reduction method; Nitrate is measured by reducing it to nitrite in an alkaline-buffered solution passing through a column of copper-cadmium metal filings and then measuring nitrite by diazotizing with sulfanilamide and coupling with N-(1-naphthyl)-ethylenediamine dihydrochloride to form a pink colored azo dye which is measured colorimetrically. Instrument: Alpkem and Astoria-Pacific Autoanalyzers</p>
<p><strong>DIP</strong>: Orthophosphate method; PO4 is measured colorimetrically as an antimony-phospho-molybdate complex (APHA 4500-P F) that is reduced to an intensely blue-colored complex by ascorbic acid. Instrument: Alpkem and Astoria-Pacific Autoanalyzers</p>
<p><strong>DOC</strong>: Combustion method; Total dissolved carbon and dissolved inorganic carbon are determined by combustion of an unacidified and acidified 0.2 micron filtered subsamples. DOC concentration is calculated by subtracting the DIC concentration from the TDC concentration. Instrument: Shimadzu TOC-5000A Total Organic Carbon Analyzer</p>
<p><strong>TOC</strong>: Combustion method; Total organic carbon is determined by combustion of an unacidified and unfiltered sample. Instrument: Shimadzu TOC-5000A Total Organic Carbon Analyzer</p>
<p><strong>DMSP</strong>: See:&nbsp;Rellinger, A., et al. Occurrence and turnover of DMSP and DMS in deep waters of the Ross Sea, Antarctica. Deep-Sea Research I 56 (2009) 686–702. doi:10.1016/j.dsr.2008.12.010</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1342694 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1342694
completed
Mary Ann Moran
University of Georgia
706-542-6481
Department of Marine Sciences
Athens
GA
30602
USA
mmoran@uga.edu
pointOfContact
James M. Birch
Monterey Bay Aquarium Research Institute
7700 Sandholdt Rd.
Moss Landing
CA
95039
USA
jbirch@mbari.org
pointOfContact
Ronald P. Kiene
University of South Alabama
pointOfContact
asNeeded
Unknown
timepoint
cubitainer
Ruegeria_pomeroyi
Thalassiosira_pseudonana
Alexandrium_tamarense
DIN
DIP
DOC
TOC
DMSP_total
DMSP_diss
flow cytometer
Shimadzu GC-2014 gas chromatograph equipped with a Chromosil 330 column and a flame photometric detector for quantification
Alpkem and Astoria-Pacific Autoanalyzers
Shimadzu TOC-5000A Total Organic Carbon Analyzer
theme
None, User defined
time of day
sample identification
bacterial abundance
diatom abundance
dinoflagellate total abundance
Dissolved Inorganic Nitrogen
Dissolved Inorganic Phosphate
dissolved organic Carbon
total organic Carbon
dimethylsulphoniopropionate concentration
featureType
BCO-DMO Standard Parameters
Flow Cytometer
Gas Chromatograph
Nutrient Autoanalyzer
Total Organic Carbon Analyzer
instrument
BCO-DMO Standard Instruments
Moran_Monterey_2014
service
Deployment Activity
Monterey Bay, CA
place
Locations
otherRestrictions
otherRestrictions
Access Constraints: none. Use Constraints: Please follow guidelines at: http://www.bco-dmo.org/terms-use Distribution liability: Under no circumstances shall BCO-DMO be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use of, or the inability to use, the materials in this data submission. If you are dissatisfied with any materials in this data submission your sole and exclusive remedy is to discontinue use.
Dimensions of Biodiversity
http://www.nsf.gov/funding/pgm_summ.jsp?pims_id=503446
Dimensions of Biodiversity
(adapted from the NSF Synopsis of Program)
Dimensions of Biodiversity is a program solicitation from the NSF Directorate for Biological Sciences. FY 2010 was year one of the program. [MORE from NSF]
The NSF Dimensions of Biodiversity program seeks to characterize biodiversity on Earth by using integrative, innovative approaches to fill rapidly the most substantial gaps in our understanding. The program will take a broad view of biodiversity, and in its initial phase will focus on the integration of genetic, taxonomic, and functional dimensions of biodiversity. Project investigators are encouraged to integrate these three dimensions to understand the interactions and feedbacks among them. While this focus complements several core NSF programs, it differs by requiring that multiple dimensions of biodiversity be addressed simultaneously, to understand the roles of biodiversity in critical ecological and evolutionary processes.
Dimensions of Biodiversity
largerWorkCitation
program
Bacterial Taxa that Control Sulfur Flux from the Ocean to the Atmosphere
https://osprey.bco-dmo.org/project/541255
Bacterial Taxa that Control Sulfur Flux from the Ocean to the Atmosphere
<p>Surface ocean bacterioplankton preside over a divergence point in the marine sulfur cycle where the fate of dimethylsulfoniopropionate (DMSP) is determined. While it is well recognized that this juncture influences the fate of sulfur in the ocean and atmosphere, its regulation by bacterioplankton is not yet understood. Based on recent findings in biogeochemistry, bacterial physiology, bacterial genetics, and ocean instrumentation, the microbial oceanography community is poised to make major advances in knowledge of this control point. This research project is ascertaining how the major taxa of bacterial DMSP degraders in seawater regulate DMSP transformations, and addresses the implications of bacterial functional, genetic, and taxonomic diversity for global sulfur cycling.</p>
<p>The project is founded on the globally important function of bacterial transformation of the ubiquitous organic sulfur compound DMSP in ocean surface waters. Recent genetic discoveries have identified key genes in the two major DMSP degradation pathways, and the stage is now set to identify the factors that regulate gene expression to favor one or the other pathway during DMSP processing. The taxonomy of the bacteria mediating DMSP cycling has been deduced from genomic and metagenomic sequencing surveys to include four major groups of surface ocean bacterioplankton. How regulation of DMSP degradation differs among these groups and maps to phylogeny in co-occurring members is key information for understanding the marine sulfur cycle and predicting its function in a changing ocean. Using model organism studies, microcosm experiments (at Dauphin Island Sea Lab, AL), and time-series field studies with an autonomous sample collection instrument (at Monterey Bay, CA), this project is taking a taxon-specific approach to decipher the regulation of bacterial DMSP degradation.</p>
<p>This research addresses fundamental questions of how the diversity of microbial life influences the geochemical environment of the oceans and atmosphere, linking the genetic basis of metabolic potential to taxonomic diversity. The project is training graduate students and post-doctoral scholars in microbial biodiversity and providing research opportunities and mentoring for undergraduate students. An outreach program is enhance understanding of the role and diversity of marine microorganisms in global elemental cycles among high school students. Advanced Placement Biology students are participating in marine microbial research that covers key learning goals in the AP Biology curriculum. Two high school students are selected each year for summer research internships in PI laboratories.</p>
OceanSulfurFluxBact
largerWorkCitation
project
eng; USA
biota
oceans
Monterey Bay, CA
-121.901
-121.901
36.835
36.835
2016-10-25
0
BCO-DMO catalogue of parameters from Cell abundance, nutrient and DMSP concentrations measured during a mesocosm study of the effect of phytoplankton composition on bacterial DMSP transformation (OceanSulfurFluxBact project)
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
http://lod.bco-dmo.org/id/dataset-parameter/662740.rdf
Name: timepoint
Units: unitless
Description: <p>Time point</p>
http://lod.bco-dmo.org/id/dataset-parameter/662741.rdf
Name: cubitainer
Units: unitless
Description: <p>Cubitainer identification: treatment and replicate number</p>
http://lod.bco-dmo.org/id/dataset-parameter/662742.rdf
Name: Ruegeria_pomeroyi
Units: cells/milliliter
Description: <p>Number of bacterial cells per ml of culture; determined by flow cytometry</p>
http://lod.bco-dmo.org/id/dataset-parameter/662743.rdf
Name: Thalassiosira_pseudonana
Units: cells/milliliter
Description: <p>Number of diatom cells per ml of culture; determined by flow cytometry</p>
http://lod.bco-dmo.org/id/dataset-parameter/662744.rdf
Name: Alexandrium_tamarense
Units: cells/milliliter
Description: <p>Number of dinoflagellate cells per ml of culture; determined by flow cytometry</p>
http://lod.bco-dmo.org/id/dataset-parameter/662745.rdf
Name: DIN
Units: micromoles/liter of culture
Description: <p>Concentrations of dissolved inorganic nitrogen; infered from the measurements of nitrate and nitrite concentrations.</p>
http://lod.bco-dmo.org/id/dataset-parameter/662746.rdf
Name: DIP
Units: micromoles/liter of culture
Description: <p>Concentrations of dissolved inorganic phosphorus; infered from the measurements of phosphate concentrations.</p>
http://lod.bco-dmo.org/id/dataset-parameter/662747.rdf
Name: DOC
Units: micromoles/liter of culture
Description: <p>Concentrations of dissolved organic carbon</p>
http://lod.bco-dmo.org/id/dataset-parameter/662748.rdf
Name: TOC
Units: micromoles/liter of culture
Description: <p>Concentrations of total organic carbon</p>
http://lod.bco-dmo.org/id/dataset-parameter/662749.rdf
Name: DMSP_total
Units: nanomoles/liter of culture
Description: <p>Total dimethylsufoniopropionate concentrations</p>
http://lod.bco-dmo.org/id/dataset-parameter/662750.rdf
Name: DMSP_diss
Units: nanomoles/liter of culture
Description: <p>Dissolved dimethylsufoniopropionate concentrations</p>
GB/NERC/BODC > British Oceanographic Data Centre, Natural Environment Research Council, United Kingdom
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
4173
https://datadocs.bco-dmo.org/file/GwwAJn3iKPDm1/switch.csv
switch.csv
Primary data file for dataset ID 662681
download
https://osprey.bco-dmo.org/dataset/662681/data/download
download
onLine
dataset
<p><strong>Cell counts</strong>: Ruegeria pomeroyi, Thalassiosira pseudonana, and Alexandrium tamarense cells were measured using a flow cytometer.</p>
<p><strong>DIN</strong>: Cadmium reduction method; Nitrate is measured by reducing it to nitrite in an alkaline-buffered solution passing through a column of copper-cadmium metal filings and then measuring nitrite by diazotizing with sulfanilamide and coupling with N-(1-naphthyl)-ethylenediamine dihydrochloride to form a pink colored azo dye which is measured colorimetrically. Instrument: Alpkem and Astoria-Pacific Autoanalyzers</p>
<p><strong>DIP</strong>: Orthophosphate method; PO4 is measured colorimetrically as an antimony-phospho-molybdate complex (APHA 4500-P F) that is reduced to an intensely blue-colored complex by ascorbic acid. Instrument: Alpkem and Astoria-Pacific Autoanalyzers</p>
<p><strong>DOC</strong>: Combustion method; Total dissolved carbon and dissolved inorganic carbon are determined by combustion of an unacidified and acidified 0.2 micron filtered subsamples. DOC concentration is calculated by subtracting the DIC concentration from the TDC concentration. Instrument: Shimadzu TOC-5000A Total Organic Carbon Analyzer</p>
<p><strong>TOC</strong>: Combustion method; Total organic carbon is determined by combustion of an unacidified and unfiltered sample. Instrument: Shimadzu TOC-5000A Total Organic Carbon Analyzer</p>
<p><strong>DMSP</strong>: See:&nbsp;Rellinger, A., et al. Occurrence and turnover of DMSP and DMS in deep waters of the Ross Sea, Antarctica. Deep-Sea Research I 56 (2009) 686–702. doi:10.1016/j.dsr.2008.12.010</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing notes:</strong><br />
- added conventional header with dataset name, PI name, version date<br />
- modified parameter names to conform with BCO-DMO naming conventions<br />
- replaced commas with underscores</p>
Specified by the Principal Investigator(s)
asNeeded
7.x-1.1
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
flow cytometer
flow cytometer
PI Supplied Instrument Name: flow cytometer PI Supplied Instrument Description:To measure abundance of cells. Instrument Name: Flow Cytometer Instrument Short Name:Flow Cytometer Instrument Description: Flow cytometers (FC or FCM) are automated instruments that quantitate properties of single cells, one cell at a time. They can measure cell size, cell granularity, the amounts of cell components such as total DNA, newly synthesized DNA, gene expression as the amount messenger RNA for a particular gene, amounts of specific surface receptors, amounts of intracellular proteins, or transient signalling events in living cells.
(from: http://www.bio.umass.edu/micro/immunology/facs542/facswhat.htm) Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB37/
Shimadzu GC-2014 gas chromatograph equipped with a Chromosil 330 column and a flame photometric detector for quantification
Shimadzu GC-2014 gas chromatograph equipped with a Chromosil 330 column and a flame photometric detector for quantification
PI Supplied Instrument Name: Shimadzu GC-2014 gas chromatograph equipped with a Chromosil 330 column and a flame photometric detector for quantification PI Supplied Instrument Description:To measure DMSP concentrations Instrument Name: Gas Chromatograph Instrument Short Name:Gas Chromatograph Instrument Description: Instrument separating gases, volatile substances, or substances dissolved in a volatile solvent by transporting an inert gas through a column packed with a sorbent to a detector for assay. (from SeaDataNet, BODC) Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB02/
Alpkem and Astoria-Pacific Autoanalyzers
Alpkem and Astoria-Pacific Autoanalyzers
PI Supplied Instrument Name: Alpkem and Astoria-Pacific Autoanalyzers PI Supplied Instrument Description:To measure DIN and DIP Instrument Name: Nutrient Autoanalyzer Instrument Short Name:Nutrient Autoanalyzer Instrument Description: Nutrient Autoanalyzer is a generic term used when specific type, make and model were not specified. In general, a Nutrient Autoanalyzer is an automated flow-thru system for doing nutrient analysis (nitrate, ammonium, orthophosphate, and silicate) on seawater samples. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB04/
Shimadzu TOC-5000A Total Organic Carbon Analyzer
Shimadzu TOC-5000A Total Organic Carbon Analyzer
PI Supplied Instrument Name: Shimadzu TOC-5000A Total Organic Carbon Analyzer PI Supplied Instrument Description:To measure DOC and TOC Instrument Name: Total Organic Carbon Analyzer Instrument Short Name:TOC analyzer Instrument Description: A unit that accurately determines the carbon concentrations of organic compounds typically by detecting and measuring its combustion product (CO2). See description document at: http://bcodata.whoi.edu/LaurentianGreatLakes_Chemistry/bs116.pdf Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB04/
Deployment: Moran_Monterey_2014
Moran_Monterey_2014
Univ_Georgia
laboratory
Moran_Monterey_2014
Mary Ann Moran
University of Georgia
Univ_Georgia
laboratory